Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.1.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06427	0.838
27DAP/17DAP	1.13459	0.842
39DAP/27DAP	0.78813	0.458
41DAP/39DAP	1.67288	0.212
42DAP/41DAP	1.0765	1
43DAP/42DAP	0.97047	0.91
47DAP/43DAP	0.95795	0.828
52DAP/47DAP	1.32833	0.538
57DAP/52DAP	1.0646	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9922	0.693
17DAP/reference	0.98156	0.777
27DAP/reference	0.98828	0.741
39DAP/reference	0.82881	0.188
41DAP/reference	0.93673	0.201
42DAP/reference	1.0154	0.931
43DAP/reference	1.00913	0.928
47DAP/reference	0.98658	0.473
52DAP/reference	0.9355	0.33
57DAP/reference	0.90906	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99303	0.826
27DAP/17DAP	0.90377	0.537
39DAP/27DAP	1.11625	0.41
41DAP/39DAP	1.05217	1
42DAP/41DAP	1.02057	0.984
43DAP/42DAP	1.05949	0.585
47DAP/43DAP	0.97381	0.861
52DAP/47DAP	1.01377	0.965
57DAP/52DAP	1.00305	1
57DAP/7DAP	1.06775	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90209	0.108
17DAP/reference	0.92142	0.049
27DAP/reference	0.85837	0.051
39DAP/reference	0.92416	0.023
41DAP/reference	0.81923	0.029
42DAP/reference	0.81218	0.016
43DAP/reference	0.85925	0.029
47DAP/reference	0.90443	0.168
52DAP/reference	0.81024	0.017
57DAP/reference	0.80286	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09203	0.355
17DAP/reference	1.05092	0.599
27DAP/reference	1.13191	0.12
39DAP/reference	0.9695	0.37
41DAP/reference	0.8588	0.048
42DAP/reference	0.88921	0.212
43DAP/reference	1.04207	0.532
47DAP/reference	0.86892	0.11
52DAP/reference	0.95562	0.302
57DAP/reference	1.06364	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90057	0.197
17DAP/reference	0.97586	0.636
27DAP/reference	0.83733	0.025
39DAP/reference	0.85185	0.031
41DAP/reference	0.89162	0.07
42DAP/reference	0.83526	0.02
43DAP/reference	0.91689	0.237
47DAP/reference	0.87116	0.036
52DAP/reference	0.77201	0.125
57DAP/reference	0.79238	0.051

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06069	0.878
26DAP/20DAP	0.95534	1
34DAP/26DAP	1.02206	1
51DAP/34DAP	1.15043	0.154
52DAP/51DAP	1.01088	0.888
53DAP/52DAP	1.13571	0.517
55DAP/53DAP	1.06202	0.527
57DAP/55DAP	0.99012	0.914
62DAP/57DAP	1.21785	0.723
68DAP/62DAP	1.18716	0.242
68DAP/14DAP	0.81185	0.375

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.17092	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02819	1
Mature Green Tomato/Ripe Tomato	0.96455	0.611
Immature Eggplant/Mature Eggplant	1.10782	0.248
Ripe Pepper/Ripe Tomato	0.55576	0.224
Mature Eggplant/Ripe Tomato	1.08072	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99865	1
1-1-2/M82	0.83413	1
12-2/M82	1.06961	1
12-4/M82	0.92521	0.358
1-3/M82	0.96397	1
2-1-1/M82	1.12894	0.689
2-1/M82	1.34515	1
2-6/M82	1.0072	1
3-2/M82	0.95324	0.428
4-1-1/M82	0.96497	1
4-1/M82	1.01572	1
4-3-2/M82	1.08012	1
4-3/M82	1.07243	1
5-3/M82	0.99573	1
6-2/M82	0.96095	0.497
6-3/M82	1.031	1
7-1/M82	1.04632	0.598
7-2/M82	1.00533	1
9-3-2/M82	0.9788	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06086	0.493
IL2-6/WTpooled	1.52139	0.584
IL7-5/WTpooled	1.6417
IL7-3/WTpooled	0.9815	1
IL12-4/WTpooled	1.19406	0.553
IL1-4/WTpooled	0.69663	0.476
WT/WTpooled	1.19561	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.04782	0.699

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06091	0.921
DC3000/delta hrp 6h	1.06586	1
DC3000/delta hrp 12h	0.9126	1
DC3000/delta hrp 24h	1.05088	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26111	0.25
DC3000 delta B/DC3000 delta AB	0.99316	1

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.22168	1
Exp 36h	0.8058	0.449
Exp 60h	0.91706	0.754

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.97556	1
Var 0h	0.95417	1
Var 12h I row2-row1	0.98961	0.627
Var 12h NI row2-row1	1.15887	1
Var 36h I row2-row1	1.03905	1
Var 36h NI row2-row1	2.689	1
Var 60h I row2-row1	0.98534	1
Var 60h NI row2-row1	1.20161	0.904
Time course 0hI-0hNI	1.10341	0.764
Time course 12hI-12hNI	1.02569	0.785
Time course 36hI-36hNI	0.77978	0.051
Time course 60hI-60hNI	0.65742	0.007

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.95855	0.529
transgenic ySAMdc/azygous control (breaker)	0.88333	0.251
transgenic ySAMdc/azygous control (red)	0.96791	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07202	0.035

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17281	0.237

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98421	1
Manapal/WT (break)	1.03081	1
Manapal/WT (red)	0.77081	0.229